Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,687,589 T→C 11.7% Y189H (TAC→CAC)  PP_4148 → ABC transporter permease

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,687,5890TC11.7% 80.9 / 3.2 34Y189H (TAC→CAC) PP_4148ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base T (15/15);  new base C (2/2);  total (17/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.05e-01

GATCCCGCTGGGGATCGCCAAGGCCGTGCGCCACGGCAGCCACTTCGACGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCGATCACC‑GCGCTGGTCATCGGCAACTTCGCCACCATGACCCTGCT  >  NC_002947/4687450‑4687734
                                                                                                                                           |                                                                                                                                                  
gATCCCGCTGGGTATCGCCAAGGCCGTGCGCCACGGCAGCCACTTCGACGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGAc                                                                                                                                            <  6:177404/148‑1 (MQ=255)
gATCCCGCTGGGGATCGCCAAGGCCGTGCGCCACGGCAGCCACTTCGACGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACt                                                                                                                                           <  4:92570/149‑1 (MQ=255)
                  cAAGGCCGTGCGCCACGGCAGCCACTTCGACGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGcc                                                                                                                         >  1:137429/1‑149 (MQ=255)
                   aaGGCCGTGCGCCACGGCAGCCACTTCGACGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTcc                                                                                                                                     >  1:131518/1‑136 (MQ=255)
                   aaGGCCGTGCGCCACGGCAGCCACTTCGACGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTcc                                                                                                                                     <  2:131518/136‑1 (MQ=255)
                    aGGCCGTGCGCCACGGTAGCCACTTCGACGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTc                                                                                                                       <  1:203925/149‑1 (MQ=255)
                             gcCACGGCAGCCACTTCGACGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCcaac                                                                                                              <  1:16499/149‑1 (MQ=255)
                                    cAGCCACTTCGACGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTcg                                                                                                       <  4:256102/149‑1 (MQ=255)
                                         aCTTCGACGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTgg                                                                                                                           >  3:24049/1‑124 (MQ=255)
                                         aCTTCGACGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTgg                                                                                                                           <  4:24049/124‑1 (MQ=255)
                                           ttCGACGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACt                                                                                                >  7:218974/1‑149 (MQ=255)
                                                cGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGca                                                                                           <  2:137429/149‑1 (MQ=255)
                                                                  aaTCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTcga                                                                                                      >  6:166111/1‑120 (MQ=255)
                                                                  aaTCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTcga                                                                                                      <  5:166111/120‑1 (MQ=255)
                                                                      atcGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGacta                                                                     <  7:135471/149‑1 (MQ=255)
                                                                       tcgtcgGCTACGCCATCCCGGCGTTCCTATTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGactac                                                                    >  1:179498/1‑149 (MQ=255)
                                                                                 cGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCCACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCAcc                                                          >  2:60545/1‑149 (MQ=255)
                                                                                 cGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCCACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCAcc                                                          >  6:165768/1‑149 (MQ=255)
                                                                                  gCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCt                                                         >  2:80795/1‑149 (MQ=255)
                                                                                    cATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTgg                                                       >  1:57668/1‑149 (MQ=255)
                                                                                         cGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTg                                                                          <  8:16652/125‑1 (MQ=255)
                                                                                         cGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTg                                                                          >  7:16652/1‑125 (MQ=255)
                                                                                            cGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCCACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCATCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCg                                               <  1:60545/149‑1 (MQ=255)
                                                                                            cGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCCACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCg                                               <  5:165768/149‑1 (MQ=255)
                                                                                                  tGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCCGCTACTTCGACTGGTTCCAGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCGATCAcc                                         >  5:157898/1‑149 (MQ=255)
                                                                                                                ctgATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCGATCACC‑GCGCTGGTCATCgg                          <  2:179498/149‑1 (MQ=255)
                                                                                                                ctgATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCGATCACC‑GCGCTGGTCATCg                           <  5:15911/148‑1 (MQ=255)
                                                                                                                  gATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCGATCACC‑GCGCTGGTCATCGGc                         >  1:76963/1‑148 (MQ=255)
                                                                                                                         cTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCGATGACCAGCGC‑GGTGATCGGCag                       >  1:269310/1‑142 (MQ=39)
                                                                                                                         cTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCGATGACCAGCGC‑GGTGATCGGCag                       <  2:269310/143‑2 (MQ=39)
                                                                                                                          tGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCGATCACC‑GCGCTGGTCATCGGCAACTTCGc                 >  7:222854/1‑148 (MQ=255)
                                                                                                                                 cGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCGATCACC‑GCGCTGGTCATCGGCAACTTCGCCACCATGa         >  8:178423/1‑149 (MQ=255)
                                                                                                                                   gTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCGCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCGATCACC‑GCGCTGGTCATCGGCAACTTCGCCACCATGAcc       <  8:218974/149‑1 (MQ=255)
                                                                                                                                        aGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCGATCACC‑GCGCTGGTCATCGGCAACTTCGCCACCATGACCctgct  >  5:171631/1‑149 (MQ=255)
                                                                                                                                           |                                                                                                                                                  
GATCCCGCTGGGGATCGCCAAGGCCGTGCGCCACGGCAGCCACTTCGACGTGTGGACCAGCTCGGCAATCATCGTCGGCTACGCCATCCCGGCGTTCCTGTTCGCCATCCTGCTGATCGTGCTGTTCGCCGGTGGCAGCTACTTCGACTGGTTCCCGCTGCGTGGCCTCACCTCCAACAACTTCGACGAACTGAGCACCACCGGCAAGGTGCTGGACTACTTCTGGCACCTGGTGCTGCCGATCACC‑GCGCTGGTCATCGGCAACTTCGCCACCATGACCCTGCT  >  NC_002947/4687450‑4687734

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑